Sparse Matrix Force Graph

The lock1074 graph from the The University of Florida Sparse Matrix Collection.

1,040 nodes with 25,276 edges. Self-edges were removed from the links array. Links are colored by the distance between nodes.

<!DOCTYPE html>
<meta charset="utf-8">
<style>
</style>
<canvas></canvas>
<script src="https://d3js.org/d3.v4.min.js"></script>
<script>
var width = 960,
    height = 600;

var linkColor = d3.scaleSequential(d3.interpolateMagma)
  .domain([220, -1])

var canvas = d3.select("canvas")
    .attr("width", width)
    .attr("height", height);

var context = canvas.node().getContext("2d");

var simulation = d3.forceSimulation()
    .force("link", d3.forceLink().id(function(d) { return d.id; }).distance(22).strength(0.2))
    .force("charge", d3.forceManyBody().strength(-6).distanceMax(380))
    .force("center", d3.forceCenter(width / 2, height / 2));

var graph = {};

d3.text("lock1074.mtx", function(error, raw) {
  if (error) throw error;

var node_set = d3.set();

var pairs = raw.split("\n")
    .slice(14)
    .map(function(d) { return d.split(" "); });

pairs.forEach(function(d) {
    node_set.add(d[0]);
    node_set.add(d[1]);
  });

graph.nodes = node_set.values().map(function(d) {
      return {
        id: d
      };
    });

graph.links = pairs.map(function(d) {
      return {
        source: d[0],
        target: d[1]
      }
    })
    .filter(function(d) {
      return d.source !== d.target;
    });

simulation
      .nodes(graph.nodes)

simulation.force("link")
      .links(graph.links);

d3.range(10).forEach(simulation.tick);

simulation
      .on("tick", ticked);

canvas.call(d3.drag()
          .container(canvas.node())
          .subject(dragsubject)
          .on("start", dragstarted)
          .on("drag", dragged)
          .on("end", dragended));

function ticked() {
    context.clearRect(0, 0, width, height);

context.globalAlpha = 0.2;
    graph.links.forEach(drawLink);

context.globalAlpha = 1;
    context.fillStyle = d3.interpolateViridis(0.15);
    graph.nodes.forEach(drawNode);
  }

function dragsubject() {
    return simulation.find(d3.event.x, d3.event.y);
  }
});

function dragstarted() {
  if (!d3.event.active) simulation.alphaTarget(0.3).restart();
  d3.event.subject.fx = d3.event.subject.x;
  d3.event.subject.fy = d3.event.subject.y;
}

function dragged() {
  d3.event.subject.fx = d3.event.x;
  d3.event.subject.fy = d3.event.y;
}

function dragended() {
  if (!d3.event.active) simulation.alphaTarget(0);
  d3.event.subject.fx = null;
  d3.event.subject.fy = null;
}

function drawLink(d) {
  var distance = Math.sqrt( Math.pow(d.source.x - d.target.x, 2) + Math.pow(d.source.x - d.target.x, 2));
  context.beginPath();
  context.moveTo(d.source.x, d.source.y);
  context.lineTo(d.target.x, d.target.y);
  context.strokeStyle = linkColor(distance);
  context.stroke();
}

function drawNode(d) {
//  context.fillStyle = d3.interpolateMagma(Math.sqrt(d.vx*d.vx + d.vy*d.vy));
  context.fillRect(d.x-0.75, d.y-0.75, 1.5, 1.5);
}

</script>

https://d3js.org/d3.v4.min.js